HHsearch alignment for GI: 254780788 and conserved domain: cd04452
>cd04452 S1_IF2_alpha S1_IF2_alpha: The alpha subunit of translation Initiation Factor 2, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Eukaryotic and archaeal Initiation Factor 2 (e- and aIF2, respectively) are heterotrimeric proteins with three subunits (alpha, beta, and gamma). IF2 plays a crucial role in the process of translation initiation. The IF2 gamma subunit contains a GTP-binding site. The IF2 beta and gamma subunits together are thought to be responsible for binding methionyl-initiator tRNA. The ternary complex consisting of IF2, GTP, and the methionyl-initiator tRNA binds to the small subunit of the ribosome, as part of a pre-initiation complex that scans the mRNA to find the AUG start codon. The IF2-bound GTP is hydrolyzed to GDP when the methionyl-initiator tRNA binds the AUG start codon, at which time the IF2 is released with its bound GDP. The large ribosomal subunit then joins with the small subunit to c
Probab=97.76 E-value=0.00016 Score=52.42 Aligned_cols=65 Identities=26% Similarity=0.295 Sum_probs=56.9
Q ss_pred HHCCCEEEEEEEECCCCEEEEEEC---CCEEEEEHHHCC------CCCCCCCCCEEEEEEEEECCCCCEEEEEEEC
Q ss_conf 520838999998405763899957---935874478748------8751152766999997611358702898715
Q gi|254780788|r 136 DKVGEIISGTVKRVEYGNVIVDLG---NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202 (526)
Q Consensus 136 ~r~Geiv~G~V~r~e~~~iiVdlg---~~ea~Lp~~e~i------p~E~~~~Gdrika~i~~V~~~~rgpqi~lSR 202 (526)
T Consensus 1 Pe~G~iv~G~V~~i~~~GafV~l~e~~g~eGlihiSEis~~~v~~~~d~~~~G~~v~~kVi~vD~~k~--~i~LS~ 74 (76)
T cd04452 1 PEEGELVVVTVKSIADMGAYVSLLEYGNIEGMILLSELSRRRIRSIRKLVKVGRKEVVKVIRVDKEKG--YIDLSK 74 (76)
T ss_pred CCCCCEEEEEEEEEECCEEEEEECCCCCCEEEEEHHHCCCCCCCCHHHHCCCCCEEEEEEEEEECCCC--EEEEEE
T ss_conf 98899999999999734699997336991999997996845115999955899999999999978999--998223